Bioconductor Gmapr

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298

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gmapR

7 months ago Tom Lin • 0

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720

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gmapR

updated 4.2 years ago by Martin Morgan 25k • written 4.2 years ago by conbward • 0

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1.2k

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gmapR

5.9 years ago Kyle Johnsen ▴ 30

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1.5k

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software error gmapr

updated 6.1 years ago by Michael Lawrence ★ 11k • written 6.1 years ago by Amer Ghalawinji • 0

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1.2k

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gmapr

updated 7.2 years ago by Michael Lawrence ★ 11k • written 7.2 years ago by karl.nordstroem • 0

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1.7k

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gmapgenome gmapr fastafile

updated 7.6 years ago by Michael Lawrence ★ 11k • written 7.6 years ago by Kyle Johnsen ▴ 30

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1.4k

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gmapR

8.1 years ago jls2282 • 0

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1.7k

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gmapr gmapgenome

updated 9.0 years ago by Michael Lawrence ★ 11k • written 9.0 years ago by sean.taylor • 0

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2.2k

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gmapR

updated 9.1 years ago by Michael Lawrence ★ 11k • written 9.1 years ago by Thomas Sandmann ▴ 90

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varianttools gmapr

updated 9.1 years ago by Michael Lawrence ★ 11k • written 9.1 years ago by Johannes Rainer ★ 2.1k

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1.4k

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gmapr gmapgenome annotationhub fafile

updated 9.1 years ago by Michael Lawrence ★ 11k • written 9.1 years ago by Johannes Rainer ★ 2.1k

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2.7k

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gmapR GmapGenome error create

9.6 years ago lelemraposo ▴ 10

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1.1k

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gmapR

10.0 years ago Chao-Jen Wong ▴ 580

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2.2k

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BiocViews VariantAnnotation Annotation biocViews Rsubread VariantAnnotation gmapR BiocViews

11.1 years ago • updated 11.0 years ago Thomas Girke ★ 1.7k

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1.4k

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GO BSgenome BSgenome gmapR GO BSgenome BSgenome gmapR

updated 11.6 years ago by Michael Lawrence ★ 11k • written 11.6 years ago by Robert Castelo ★ 3.4k

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1.7k

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gmapR gmapR

11.8 years ago Dan Tenenbaum ★ 8.2k

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1.3k

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gmapR gmapR

updated 11.9 years ago by Martin Morgan 25k • written 11.9 years ago by Guest User ★ 13k

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gmapR gmapR

updated 11.9 years ago by Michael Lawrence ★ 11k • written 11.9 years ago by Tim Triche ★ 4.2k

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1.3k

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Cancer genomes Rsubread gmapR Cancer genomes Rsubread gmapR

12.4 years ago Martin Morgan 25k

19 results • Page 1 of 1

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Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k

Sorry, I cannot follow what you're saying. The two code sequences you show look to be exactly the same.

Answer: Mean variance curve troubleshoot filtering by Gordon Smyth 52k

You could use `filterByExpr()`, as recommended by Law et al (2018) and in the limma and edgeR case studies. However, the main problem wi…

Comment: How do I fix an odd voom plot in a combined dataset? by Gordon Smyth 52k

The fact that you have partial NA coefficients indicates that your merged dataset consists in good part of NAs for a very large number of g…

Comment: How do I fix an odd voom plot in a combined dataset? by 1sunmic2 • 0

Thanks for responding! I did change the code slightly: dge1 <- DGEList(counts = combined_data_counts) keep <- rowSums(cpm(dge1)…

Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0

The estimateGLMRobustDisp() function seems to have an effect on glmQLFit(), even in edgeR 4 (4.4.1). If I use estimateGLMRobustDisp(), like…

Votes

Answer: How do I fix an odd voom plot in a combined dataset?

Comment: How do I fix an odd voom plot in a combined dataset?

C: How does edgeR cpm function calculate log(CPM) values?

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